Gene loci information

Transcript annotation

  • This transcript has been annotated as rRNA 2’-O-methyltransferase fibrillarin.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g2045 g2045.t1 TTS g2045.t1 14816239 14816239
chr_3 g2045 g2045.t1 isoform g2045.t1 14816462 14818149
chr_3 g2045 g2045.t1 exon g2045.t1.exon1 14816462 14817049
chr_3 g2045 g2045.t1 cds g2045.t1.CDS1 14816462 14817049
chr_3 g2045 g2045.t1 exon g2045.t1.exon2 14817320 14817462
chr_3 g2045 g2045.t1 cds g2045.t1.CDS2 14817320 14817462
chr_3 g2045 g2045.t1 exon g2045.t1.exon3 14817526 14817586
chr_3 g2045 g2045.t1 cds g2045.t1.CDS3 14817526 14817586
chr_3 g2045 g2045.t1 exon g2045.t1.exon4 14817654 14817704
chr_3 g2045 g2045.t1 cds g2045.t1.CDS4 14817654 14817704
chr_3 g2045 g2045.t1 exon g2045.t1.exon5 14817780 14817856
chr_3 g2045 g2045.t1 cds g2045.t1.CDS5 14817780 14817856
chr_3 g2045 g2045.t1 exon g2045.t1.exon6 14818137 14818149
chr_3 g2045 g2045.t1 cds g2045.t1.CDS6 14818137 14818149
chr_3 g2045 g2045.t1 TSS g2045.t1 14818268 14818268

Sequences

>g2045.t1 Gene=g2045 Length=933
ATGGGAAGACCGCCATTCACTCCAAGAGGTGGTGGAGGACGCGGAGGAAATAGAGGAGGC
GGTGGCAGAGGTGGTGGATTCAAGCCAAGAGGTGGTGGTGGAAGAGGTGGATTCAAAGGT
GCTGATCGTGGCGGTGGACGCGGAAGAGGAGGACCAAGAGGAGGAGGAAGAGGCGGCCGT
GGTGGTGGTGGAGCAAAAGGCGGTTTTAAAGGTGGCAAAACTGTTATGGTTGAGCCTCAT
CGACATGCAGGAATTTTTGTTGCTCGTGGAAAAGAGGATGCACTTGTTACATTAAATCTT
GTACCTGGCTCAGAAGTATATGGAGAAAAACGTATTTCTGTAGAAACTGATGGTGAGAAA
AAAGAATATCGTGTTTGGAATCCATTCAGATCAAAGTTAGCAGCAGCTATTCTCGGTGGA
GTTGAAGAAATCTATATAGCACCAGGTTCAAAGGTTTTATATCTTGGTGCAGCTTCAGGA
ACCACTGTTAGTCATGTGAGTGATGTTGTTGGTCCTGAAGGTCTCGTTTATGCAGTAGAA
TTCTCTCATCGTTCCGGTCGTGATCTTATAAATGTTGCCAAGAAACGAACCAACATTATT
CCAATCATTGAAGATGCTCGACATCCACACAAATATCGAATGTTAGTAGGAATGGTTGAT
ACCATTTTTGCGGATGTTGCTCAACCCGATCAGGCTCGTATTGTGATACTTAATGCACAA
AACTTTCTCAAAACGGGCGGGCATTTTGTTATTTCCATCAAAGCATCTTGTATTGATTCA
ACAGCCAAACCTGAAGCTGTATTCGCATCAGAAGTTGATAAACTCAAAGCTGAAAAATTG
AAACCTCTAGAACAAGTGACATTAGAACCTTATGAAAGAGATCACGCAGTTGTTTGTGGA
GTTTTTAGACCACCAGAAAAGAAAAAGAACTAA

>g2045.t1 Gene=g2045 Length=310
MGRPPFTPRGGGGRGGNRGGGGRGGGFKPRGGGGRGGFKGADRGGGRGRGGPRGGGRGGR
GGGGAKGGFKGGKTVMVEPHRHAGIFVARGKEDALVTLNLVPGSEVYGEKRISVETDGEK
KEYRVWNPFRSKLAAAILGGVEEIYIAPGSKVLYLGAASGTTVSHVSDVVGPEGLVYAVE
FSHRSGRDLINVAKKRTNIIPIIEDARHPHKYRMLVGMVDTIFADVAQPDQARIVILNAQ
NFLKTGGHFVISIKASCIDSTAKPEAVFASEVDKLKAEKLKPLEQVTLEPYERDHAVVCG
VFRPPEKKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g2045.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 72 126 1.4E-27
14 g2045.t1 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 127 304 1.5E-89
4 g2045.t1 Hamap MF_00351 Fibrillarin-like rRNA/tRNA 2’-O-methyltransferase [flpA]. 91 303 38.475529
18 g2045.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 70 -
2 g2045.t1 PANTHER PTHR10335:SF4 RRNA 2’-O-METHYLTRANSFERASE FIBRILLARIN 2 310 6.5E-148
3 g2045.t1 PANTHER PTHR10335 RRNA 2-O-METHYLTRANSFERASE FIBRILLARIN 2 310 6.5E-148
15 g2045.t1 PIRSF PIRSF006540 Nop17p 32 306 3.6E-121
5 g2045.t1 PRINTS PR00052 Fibrillarin signature 95 114 1.3E-89
7 g2045.t1 PRINTS PR00052 Fibrillarin signature 122 141 1.3E-89
10 g2045.t1 PRINTS PR00052 Fibrillarin signature 149 170 1.3E-89
11 g2045.t1 PRINTS PR00052 Fibrillarin signature 174 191 1.3E-89
8 g2045.t1 PRINTS PR00052 Fibrillarin signature 199 228 1.3E-89
6 g2045.t1 PRINTS PR00052 Fibrillarin signature 229 258 1.3E-89
9 g2045.t1 PRINTS PR00052 Fibrillarin signature 281 302 1.3E-89
1 g2045.t1 Pfam PF01269 Fibrillarin 77 303 2.1E-108
17 g2045.t1 ProSitePatterns PS00566 Fibrillarin signature. 174 188 -
16 g2045.t1 SMART SM01206 Fibrillarin_2 77 304 9.4E-173
12 g2045.t1 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 76 302 2.72E-50

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0003723 RNA binding MF
GO:0008168 methyltransferase activity MF
GO:0006364 rRNA processing BP

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values